Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A9 F255 I0 R1
|
121 |
91.8 |
4500463 |
95.1% |
4279940 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
435,946 |
G→A |
36.4% |
D105N (GAC→AAC) |
thiL → |
thiamine monophosphate kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 435,946 | 0 | G | A | 36.4%
| 75.0
/ 62.7
| 74 | D105N (GAC→AAC) | thiL | thiamine monophosphate kinase |
| Reads supporting (aligned to +/- strand): ref base G (28/19); new base A (13/14); total (41/33) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
CCTAAGCGATCTGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCACGGCTTTG > NC_000913/435849‑436045
|
ccTAAGCGATCTGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGAc > 2:682898/1‑100 (MQ=255)
aaGCGATCTGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAgt > 1:1895034/1‑100 (MQ=255)
tCTGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAgtttgttt < 2:169163/100‑1 (MQ=255)
tGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGa > 1:1132849/1‑100 (MQ=255)
tGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGa > 1:1552572/1‑100 (MQ=255)
tGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGa < 2:1945772/100‑1 (MQ=255)
tGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGGGGCTTGAGTCCTTCAGCGACAGTTTGTTTGa > 2:839772/1‑100 (MQ=255)
ggCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAt < 2:1779459/100‑1 (MQ=255)
gCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGTGATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGAtc < 2:478689/100‑1 (MQ=255)
gCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTATCCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGAt < 2:712265/99‑1 (MQ=255)
gCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAtc < 2:681129/100‑1 (MQ=255)
gCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAtc > 1:2025159/1‑100 (MQ=255)
gCAGCGATGAGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTCCCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTCTGAtc < 2:2241947/100‑1 (MQ=255)
cAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAtct > 2:2209342/1‑100 (MQ=255)
cAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGAtc > 2:864977/1‑99 (MQ=255)
gCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAtcttc < 2:1132846/100‑1 (MQ=255)
cGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGAtcttct > 2:414712/1‑100 (MQ=255)
gATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTtctc > 2:243036/1‑100 (MQ=255)
tGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCaa < 2:869028/100‑1 (MQ=255)
gggggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAat > 2:284034/1‑100 (MQ=255)
ggggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAatt > 2:2138390/1‑100 (MQ=255)
gggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAatta > 2:495982/1‑100 (MQ=255)
ggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAattat > 1:735389/1‑100 (MQ=255)
ggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAattat > 1:896997/1‑100 (MQ=255)
ggCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAattat > 2:1899582/1‑100 (MQ=255)
gCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAattatt > 2:1461848/1‑100 (MQ=255)
ccGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAAttatta < 2:1496949/100‑1 (MQ=255)
ctaTCCGGCCTTGCTGACGCTGTCATTAACCTTACCGGACTTAGACGAATCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTAc < 2:2106096/98‑1 (MQ=255)
gATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACg > 1:1211287/1‑100 (MQ=255)
tCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGat > 2:223919/1‑100 (MQ=255)
ccGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGata < 2:735389/100‑1 (MQ=255)
ccGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGata < 2:1554657/100‑1 (MQ=255)
cGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGatat < 1:1616715/100‑1 (MQ=255)
cGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGatat > 1:2156503/1‑100 (MQ=255)
tGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAAc > 1:1033086/1‑100 (MQ=255)
gCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTc > 1:889638/1‑100 (MQ=255)
cTGACGCTGGCATTAACCTGACCGGACGGAGACTAAGCGTGGCTTGAGTCCTTCAGTGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTc < 2:2093292/99‑1 (MQ=255)
aCGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTg > 2:821388/1‑100 (MQ=255)
gCTGGCATTAACCTTGCCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTggc < 1:2209357/100‑1 (MQ=255)
cTGGCATTAACCTTACCGGATGTAGACTAAGCGTGGCTTTAGTCTTTCAGCAACTGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTggc < 2:712083/99‑1 (MQ=255)
cTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTggcg < 2:945131/100‑1 (MQ=255)
tGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTggcgg > 2:86527/1‑100 (MQ=255)
ggCATTGACCTTACCGGACGTAAAAGAAGCGTGGCTAGAGAAATTCAGCGACTGTTTGTTTGATCTTCCGACATATTACGATATTCTACTCTTTggc > 2:844225/1‑97 (MQ=255)
ggCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTggcggc < 1:976610/100‑1 (MQ=255)
gCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGgcggcg < 2:1124368/100‑1 (MQ=255)
gCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGgcggcg > 1:607234/1‑100 (MQ=255)
gCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTCCGATATGCAACTCATTGgcggcg < 2:448860/100‑1 (MQ=255)
aTTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGAt > 1:373746/1‑100 (MQ=255)
aTTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGGCCTTCAGCGACAGTTTGTTTGATCGTCTCAATTATTACGATATGCAACTCATTGgcggcg < 2:1210620/98‑1 (MQ=255)
aCCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCa > 1:962937/1‑100 (MQ=255)
aCCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCa > 1:1589271/1‑100 (MQ=255)
cGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTgg < 2:1552561/100‑1 (MQ=255)
ggACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTggg > 2:1907994/1‑100 (MQ=255)
gACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGc < 1:793425/100‑1 (MQ=255)
aCGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGcc > 1:1596863/1‑100 (MQ=255)
cGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGcc > 1:1420487/1‑99 (MQ=255)
tAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCAtt < 1:664618/100‑1 (MQ=255)
gACGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTAt > 2:1923959/1‑100 (MQ=255)
cGAAGCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCa > 1:540724/1‑100 (MQ=255)
gAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCa < 2:108989/99‑1 (MQ=255)
gCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGa > 2:969948/1‑100 (MQ=255)
gCGTGGCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGa < 1:1789512/100‑1 (MQ=255)
gTGGCTTGAGTCCTTAAGCGACAGTTTGTTTGATGTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGa > 2:1840693/1‑98 (MQ=255)
ggCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGtt > 1:682111/1‑100 (MQ=255)
ggCTTGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGtt < 2:847984/100‑1 (MQ=255)
ttGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTggg < 1:206619/100‑1 (MQ=255)
ttGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTggg < 1:451301/100‑1 (MQ=255)
ttGAGTCCTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTggg < 1:1092942/100‑1 (MQ=255)
aGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTAt > 2:1759673/1‑100 (MQ=255)
ccTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTAt > 2:1352593/1‑97 (MQ=255)
ccTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCa > 2:1250424/1‑100 (MQ=255)
ccTTCAGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCa < 1:54972/100‑1 (MQ=255)
cAGCAACAGTTTGTTTGATCTTCTCAATTTTTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCACGGc < 2:1349400/100‑1 (MQ=255)
aGCAACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCACGGCt > 2:821719/1‑100 (MQ=255)
gACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCACGGCTTTg < 1:816775/100‑1 (MQ=255)
|
CCTAAGCGATCTGGCAGCGATGGGGGCCGATCCGGCCTGGCTGACGCTGGCATTAACCTTACCGGACGTAGACGAAGCGTGGCTTGAGTCCTTCAGCGACAGTTTGTTTGATCTTCTCAATTATTACGATATGCAACTCATTGGCGGCGATACCACGCGTGGGCCATTATCAATGACGTTGGGTATCCACGGCTTTG > NC_000913/435849‑436045
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
